[English] 日本語
Yorodumi- PDB-2lgi: Atomic Resolution Protein Structures using NMR Chemical Shift Tensors -
+Open data
-Basic information
Entry | Database: PDB / ID: 2lgi | ||||||
---|---|---|---|---|---|---|---|
Title | Atomic Resolution Protein Structures using NMR Chemical Shift Tensors | ||||||
Components | Immunoglobulin G-binding protein G | ||||||
Keywords | PROTEIN BINDING / GB1 / IMMUNOGLOBULIN BINDING DOMAIN / TEDOR / IGG-BINDING PROTEIN / PEPTIDOGLYCAN-ANCHOR / SECRETED / THERMOSTABLE | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Streptococcus sp. group G (bacteria) | ||||||
Method | SOLID-STATE NMR / simulated annealing | ||||||
Model details | closest to the average, model 10 | ||||||
Authors | Wylie, B.J. / Sperling, L.J. / Nieuwkoop, A.J. / Franks, W.T. / Oldfield, E. / Rienstra, C.M. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2011 Title: Ultrahigh resolution protein structures using NMR chemical shift tensors. Authors: Wylie, B.J. / Sperling, L.J. / Nieuwkoop, A.J. / Franks, W.T. / Oldfield, E. / Rienstra, C.M. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 2lgi.cif.gz | 171.1 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb2lgi.ent.gz | 141.3 KB | Display | PDB format |
PDBx/mmJSON format | 2lgi.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2lgi_validation.pdf.gz | 401.2 KB | Display | wwPDB validaton report |
---|---|---|---|---|
Full document | 2lgi_full_validation.pdf.gz | 455.7 KB | Display | |
Data in XML | 2lgi_validation.xml.gz | 13.4 KB | Display | |
Data in CIF | 2lgi_validation.cif.gz | 20.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/lg/2lgi ftp://data.pdbj.org/pub/pdb/validation_reports/lg/2lgi | HTTPS FTP |
-Related structure data
Related structure data | |
---|---|
Similar structure data | |
Other databases |
-Links
-Assembly
Deposited unit |
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
1 |
| |||||||||
NMR ensembles |
|
-Components
#1: Antibody | Mass: 6228.809 Da / Num. of mol.: 1 / Fragment: 2-1 repeat region residues 229-282 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Streptococcus sp. group G (bacteria) / Gene: spg / Production host: Escherichia coli (E. coli) / Strain (production host): BL21 / References: UniProt: P06654 |
---|
-Experimental details
-Experiment
Experiment | Method: SOLID-STATE NMR | ||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NMR experiment |
|
-Sample preparation
Details | Contents: 20 mg U-2-13C-glycerol; U-100% 15N GB1 / Solvent system: solid |
---|---|
Sample | Conc.: 20 mg/mL / Component: GB1-1 / Isotopic labeling: U-2-13C-glycerol; U-100% 15N |
Sample conditions | Ionic strength: 50 / pH: 5.5 / Pressure: ambient / Temperature: 273 K |
-NMR measurement
NMR spectrometer | Type: Varian Infinity Plus / Manufacturer: Varian / Model: Infinity Plus / Field strength: 500 MHz |
---|
-Processing
NMR software |
| ||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method: simulated annealing / Software ordinal: 1 | ||||||||||||||||||||||||||||||||||||||||
NMR representative | Selection criteria: closest to the average | ||||||||||||||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 200 / Conformers submitted total number: 10 |